org.nmdp.ngs.hml.jaxb.Sequence Maven / Gradle / Ivy
//
// This file was generated by the JavaTM Architecture for XML Binding(JAXB) Reference Implementation, v2.2.10-b140310.1920
// See http://java.sun.com/xml/jaxb
// Any modifications to this file will be lost upon recompilation of the source schema.
// Generated on: 2015.06.03 at 09:54:38 AM CDT
//
package org.nmdp.ngs.hml.jaxb;
import java.util.HashMap;
import java.util.Map;
import javax.xml.bind.annotation.XmlAccessType;
import javax.xml.bind.annotation.XmlAccessorType;
import javax.xml.bind.annotation.XmlAnyAttribute;
import javax.xml.bind.annotation.XmlSeeAlso;
import javax.xml.bind.annotation.XmlType;
import javax.xml.bind.annotation.XmlValue;
import javax.xml.namespace.QName;
/**
*
* The DNA alphabet consists of primary nucleotides (A, C, G, T).
*
* Wildcard IUPAC nucleotides (M, R, W, S, Y, K, V, H, D, B, X, N) may be
* used if they are acceptable in the context in which they appear. The
* default is to use all upper case letters.
*
* The full specification of the IUPAC codes may be found here:
* (http://nar.oxfordjournals.org/content/13/9/3021.short)
* Cornish-Bowden A. Nomenclature for incompletely specified bases in
* nucleic acid sequences: recommendations 1984. Nucleic Acids Res. 1985;
* 13:3021-3030.
*
* Attribute:
* ----------
* - xs:anyAttribute: Custom use attribute for additional sequence
* information. (optional)
* Data:
* -----
* - Sequence in the DNA alphabet (string, required)
*
*
* Java class for sequence complex type.
*
*
The following schema fragment specifies the expected content contained within this class.
*
*
* <complexType name="sequence">
* <simpleContent>
* <extension base="<http://schemas.nmdp.org/spec/hml/1.0.1>iupac-bases">
* <anyAttribute/>
* </extension>
* </simpleContent>
* </complexType>
*
*
*
*/
@XmlAccessorType(XmlAccessType.FIELD)
@XmlType(name = "sequence", propOrder = {
"value"
})
@XmlSeeAlso({
Amplification.class,
Gssp.class,
SubAmplification.class
})
public class Sequence {
@XmlValue
protected String value;
@XmlAnyAttribute
private Map otherAttributes = new HashMap();
/**
*
* Nucleotide bases representing sequence ambiguity.
* Primary nucleotides: A, C, G, T (DNA).
* "Wildcard" nucleotides: M, R, W, S, Y, K, V, H, D, B, X, N.
*
* Wildcard nucleotides may be used if they are acceptable in the context
* in which they appear. The default is to use all upper case letters.
*
* The full specification of the IUPAC codes may be found here:
* (http://nar.oxfordjournals.org/content/13/9/3021.short)
* Cornish-Bowden A. Nomenclature for incompletely specified bases in
* nucleic acid sequences: recommendations 1984. Nucleic Acids Res. 1985;
* 13:3021-3030.
*
* The bases of the sequence string are restricted to the upper and lower case
* versions of the nucleotides specified above.
*
* Data:
* ----
* - Nucleotide sequence in DNA alphabet (string, required)
*
*
* @return
* possible object is
* {@link String }
*
*/
public String getValue() {
return value;
}
/**
* Sets the value of the value property.
*
* @param value
* allowed object is
* {@link String }
*
*/
public void setValue(String value) {
this.value = value;
}
/**
* Gets a map that contains attributes that aren't bound to any typed property on this class.
*
*
* the map is keyed by the name of the attribute and
* the value is the string value of the attribute.
*
* the map returned by this method is live, and you can add new attribute
* by updating the map directly. Because of this design, there's no setter.
*
*
* @return
* always non-null
*/
public Map getOtherAttributes() {
return otherAttributes;
}
}